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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $species_info = array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ) $local_species = 'chi' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $species_info = array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ) $local_species = 'chi' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ), 'gf_id' => 'HOM05D000991', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000991' ), 'data_identifier' => 'HOM05D000991', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000991', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '608', 'num_species' => '91' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Aa31LG5G13130' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.1762' => 'aag', 'Actinidia21921' => 'ach', 'Actinidia24286' => 'ach', 'Actinidia25435' => 'ach', 'Actinidia26344' => 'ach', 'Actinidia26345' => 'ach', 'Ah.09g224030' => 'amhyb', 'Ah.13g075080' => 'amhyb', 'AL3G12020' => 'aly', 'Aqoxy7G03562' => 'aox', 'arahy.Tifrunner.gnm1.ann1.ALB3WU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DWFH4A' => 'arhy', 'AT3G02645' => 'ath', 'ATR0767G035' => 'atr', 'ATR0767G101' => 'atr', 'ATR0767G202' => 'atr', 'Atru.chr2.1902' => 'acertr', 'AUR62011234' => 'cqu', 'AUR62011237' => 'cqu', 'AUR62019997' => 'cqu', 'AUR62019999' => 'cqu', 'AUR62044664' => 'cqu', 'BcaC05g30371' => 'bca', 'BcaC05g30517' => 'bca', 'BNapus_Darmor_BZH_scaffold_122p00140' => 'bna', 'BNapus_Darmor_BZH_scaffold_99p00170' => 'bna', 'BolC1t05889H' => 'bol', 'BraSC246t45825Z' => 'bra', 'C09p75820' => 'bna', 'CANSAT56G0148' => 'cansat', 'CANSAT56G2052' => 'cansat', 'CANSAT56G3926' => 'cansat', 'CARHR076650' => 'chi', 'Carub.0003s0176' => 'cru', 'Ca_06962_v3' => 'car', 'Cc02_g18250' => 'ccan', 'Cc03_g14370' => 'ccan', 'Cc03_g14870' => 'ccan', 'Cc03_g14910' => 'ccan', 'Cc04_g04760' => 'ccan', 'Cc04_g04770' => 'ccan', 'Cc04_g04790' => 'ccan', 'Cc06_g07570' => 'ccan', 'Cc06_g19440' => 'ccan', 'Cc08_g09410' => 'ccan', 'Cc08_g09450' => 'ccan', 'Cc09_g06480' => 'ccan', 'Cfa001860' => 'cfa', 'Cfa001919' => 'cfa', 'Cfa001920' => 'cfa', 'Cfa013110' => 'cfa', 'Cfa013111' => 'cfa', 'Cfa013112' => 'cfa', 'Cfa013113' => 'cfa', 'Cfa021470' => 'cfa', 'Cfa021471' => 'cfa', 'Ciclev10025330m.g' => 'ccl', 'Ciclev10026970m.g' => 'ccl', 'Ciclev10027162m.g' => 'ccl', 'Ciclev10027325m.g' => 'ccl', 'Ciclev10027364m.g' => 'ccl', 'Ciclev10027367m.g' => 'ccl', 'Ciclev10027406m.g' => 'ccl', 'Ciclev10027418m.g' => 'ccl', 'Ciclev10027555m.g' => 'ccl', 'Ciclev10027562m.g' => 'ccl', 'Ciclev10027572m.g' => 'ccl', 'Ciclev10027595m.g' => 'ccl', 'CiPaw.01G251300' => 'cil', 'CiPaw.02G159600' => 'cil', 'CiPaw.02G159900' => 'cil', 'CiPaw.02G160200' => 'cil', 'CiPaw.07G226300' => 'cil', 'CiPaw.07G226400' => 'cil', 'CiPaw.07G226500' => 'cil', 'CiPaw.08G008800' => 'cil', 'ClCG01G014600' => 'cla', 'ClCG07G012330' => 'cla', 'ClCG08G000460' => 'cla', 'ClCG08G000550' => 'cla', 'ClCG09G003140' => 'cla', 'ClCG09G003150' => 'cla', 'COL.COLO4_11834' => 'col', 'COL.COLO4_11835' => 'col', 'COL.COLO4_11836' => 'col', 'COL.COLO4_14660' => 'col', 'COL.COLO4_14661' => 'col', 'COL.COLO4_14662' => 'col', 'COL.COLO4_14663' => 'col', 'COL.COLO4_38357' => 'col', 'COL.COLO4_38358' => 'col', 'COL.COLO4_38359' => 'col', 'Cpa.g.sc10.129' => 'cpa', 'CsaV3_4G001810' => 'csa', 'CsaV3_5G040280' => 'csa', 'CsaV3_5G040320' => 'csa', 'CsaV3_7G032080' => 'csa', 'CsaV3_7G032110' => 'csa', 'CSS0002323' => 'camsi', 'CSS0004949' => 'camsi', 'CSS0005206' => 'camsi', 'CSS0006522' => 'camsi', 'CSS0011245' => 'camsi', 'CSS0012743' => 'camsi', 'CSS0013659' => 'camsi', 'CSS0019868' => 'camsi', 'CSS0020908' => 'camsi', 'CSS0025926' => 'camsi', 'CSS0027718' => 'camsi', 'CSS0031010' => 'camsi', 'CSS0033221' => 'camsi', 'CSS0043448' => 'camsi', 'CSS0048892' => 'camsi', 'DCAR_015478' => 'dca', 'DCAR_016282' => 'dca', 'DCAR_017995' => 'dca', 'DCAR_017996' => 'dca', 'Dinv00030' => 'din', 'Dinv23319' => 'din', 'Dinv23321' => 'din', 'Dinv38151' => 'din', 'Dinv38152' => 'din', 'Dinv38153' => 'din', 'Dinv38154' => 'din', 'Dinv38155' => 'din', 'Dinv38156' => 'din', 'Duzib192G0345' => 'dzi', 'Duzib213G0428' => 'dzi', 'Duzib235G1339' => 'dzi', 'ECA232G2313' => 'eca', 'ECA232G3964' => 'eca', 'ECA232G4850' => 'eca', 'ECA233G6207' => 'eca', 'ECA234G0020' => 'eca', 'ECA234G2792' => 'eca', 'ECA234G4155' => 'eca', 'ECA234G4467' => 'eca', 'ECA234G4510' => 'eca', 'ECA236G0146' => 'eca', 'ECA240G1373' => 'eca', 'ECA240G1430' => 'eca', 'ECA240G3184' => 'eca', 'EL10Ac8g18798' => 'bvu', 'EL10Ac8g18799' => 'bvu', 'EL10Ac8g18800' => 'bvu', 'Eucgr.F03927' => 'egr', 'Eucgr.F03928' => 'egr', 'Eucgr.F03929' => 'egr', 'Eucgr.F03930' => 'egr', 'Eucgr.F03931' => 'egr', 'Eucgr.G01224' => 'egr', 'Eucgr.G01225' => 'egr', 'Eucgr.G01227' => 'egr', 'Eucgr.G01230' => 'egr', 'Eucgr.H00377' => 'egr', 'Eucgr.H00378' => 'egr', 'Eucgr.H00379' => 'egr', 'Eucgr.H00381' => 'egr', 'Eucgr.H00382' => 'egr', 'Eucgr.H00384' => 'egr', 'Eucgr.L01981' => 'egr', 'Eucgr.L02105' => 'egr', 'Eucgr.L02244' => 'egr', 'Eucgr.L02360' => 'egr', 'Eucgr.L02628' => 'egr', 'Eucgr.L02902' => 'egr', 'FAN02G1948' => 'fan', 'FAN05G2229' => 'fan', 'FAN09G1143' => 'fan', 'FAN14G4356' => 'fan', 'FvH4_6g29070' => 'fve', 'Glyma.07G027500' => 'gma', 'Glyma.07G027600' => 'gma', 'Glyma.08G215200' => 'gma', 'Glyma.09G159700' => 'gma', 'Glyma.09G159800' => 'gma', 'Glyma.09G159900' => 'gma', 'Glyma.16G209100' => 'gma', 'Glyma.18G276700' => 'gma', 'Glyma.20G215400' => 'gma', 'Glyma.20G215500' => 'gma', 'Gohir.A05G121400' => 'ghi', 'Gohir.A06G114000' => 'ghi', 'Gohir.D05G122400' => 'ghi', 'Gohir.D06G118400' => 'ghi', 'Gorai.009G125900' => 'gra', 'Gorai.010G136100' => 'gra', 'GSVIVG01016554001' => 'vvi', 'GSVIVG01017510001' => 'vvi', 'GSVIVG01017512001' => 'vvi', 'GSVIVG01027389001' => 'vvi', 'HanXRQChr03g0063461' => 'han', 'HanXRQChr03g0063471' => 'han', 'HanXRQChr04g0098251' => 'han', 'HanXRQChr09g0243071' => 'han', 'HanXRQChr09g0256281' => 'han', 'HanXRQChr09g0274691' => 'han', 'HanXRQChr10g0310461' => 'han', 'HanXRQChr10g0315101' => 'han', 'HanXRQChr10g0315111' => 'han', 'HanXRQChr10g0315121' => 'han', 'HanXRQChr10g0315131' => 'han', 'HanXRQChr10g0315151' => 'han', 'HanXRQChr10g0315171' => 'han', 'HanXRQChr10g0315181' => 'han', 'HanXRQChr10g0315201' => 'han', 'HanXRQChr10g0315211' => 'han', 'HanXRQChr10g0315231' => 'han', 'HanXRQChr10g0315251' => 'han', 'HanXRQChr10g0315261' => 'han', 'HanXRQChr12g0361601' => 'han', 'HanXRQChr12g0361611' => 'han', 'HanXRQChr14g0431301' => 'han', 'HanXRQChr16g0499861' => 'han', 'HanXRQChr16g0499881' => 'han', 'HanXRQChr16g0499891' => 'han', 'HanXRQChr16g0499901' => 'han', 'HanXRQChr16g0499911' => 'han', 'HanXRQChr16g0499921' => 'han', 'HanXRQChr16g0499931' => 'han', 'HanXRQChr16g0499941' => 'han', 'HanXRQChr16g0499951' => 'han', 'HanXRQChr16g0499961' => 'han', 'Haze_16623' => 'cav', 'Haze_16624' => 'cav', 'Haze_16686' => 'cav', 'Haze_16702' => 'cav', 'Haze_21468' => 'cav', 'Haze_21470' => 'cav', 'Haze_21473' => 'cav', 'Haze_21474' => 'cav', 'Haze_21475' => 'cav', 'Haze_24713' => 'cav', 'HPP92_010013' => 'vpl', 'HPP92_010014' => 'vpl', 'HPP92_015280' => 'vpl', 'HPP92_017505' => 'vpl', 'Lalb_Chr04g0258311' => 'lal', 'Lalb_Chr22g0354181' => 'lal', 'Lj1g0000897' => 'lja', 'Lj3g0007897' => 'lja', 'Lj5C77T13' => 'lonja', 'Lj5C77T2' => 'lonja', 'Lj5C77T3' => 'lonja', 'Lj6A139T9' => 'lonja', 'Lj6A143T5' => 'lonja', 'Lj6C146T0' => 'lonja', 'Lj6C146T1' => 'lonja', 'Lj6C152G1' => 'lonja', 'Lj6C213T0' => 'lonja', 'Lj6C215G0' => 'lonja', 'Lj6P136T4' => 'lonja', 'Lj6P137T3' => 'lonja', 'Lj6P137T7' => 'lonja', 'Lj6P140T6' => 'lonja', 'Lj6P141T3' => 'lonja', 'Lj6P144T4' => 'lonja', 'Lj6P149T4' => 'lonja', 'Lj6P158T6' => 'lonja', 'Lj6P213T8' => 'lonja', 'Lj6P214T4' => 'lonja', 'Lj6P322T12' => 'lonja', 'Lj6P330T10' => 'lonja', 'Lj6P331T56' => 'lonja', 'Lj7A440G34' => 'lonja', 'Lj7A440G35' => 'lonja', 'Lj7A448G23' => 'lonja', 'Lj7C440T8' => 'lonja', 'Lj7C441T1' => 'lonja', 'Lj7C444T1' => 'lonja', 'Lj7C445T0' => 'lonja', 'Lj7C446G0' => 'lonja', 'Lj7P443T28' => 'lonja', 'Lj7P444T15' => 'lonja', 'Lj7P444T20' => 'lonja', 'Lj7P445T12' => 'lonja', 'Lj7P446T13' => 'lonja', 'Lj7P449T12' => 'lonja', 'Lj9A496T70' => 'lonja', 'Lj9A496T71' => 'lonja', 'Lj9A705G38' => 'lonja', 'Lj9A705T40' => 'lonja', 'Lj9C205T5' => 'lonja', 'Lj9C206T1' => 'lonja', 'Lj9C496T17' => 'lonja', 'Lj9C705G10' => 'lonja', 'Lj9C705T13' => 'lonja', 'Lju124C0T0' => 'lonja', 'Lju124C1T4' => 'lonja', 'Lju124C2T2' => 'lonja', 'Lju124P1T8' => 'lonja', 'Lju220A0T56' => 'lonja', 'Lju220C0T26' => 'lonja', 'Lju3732A0G29' => 'lonja', 'Lju4271C0G0' => 'lonja', 'Lsat_1_v5_gn_1_100740' => 'lsa', 'Lsat_1_v5_gn_1_100781' => 'lsa', 'Lsat_1_v5_gn_1_31160' => 'lsa', 'Lsat_1_v5_gn_4_19440' => 'lsa', 'Lsat_1_v5_gn_4_86141' => 'lsa', 'Lsat_1_v5_gn_4_86161' => 'lsa', 'Lsat_1_v5_gn_4_86221' => 'lsa', 'Lsat_1_v5_gn_5_92460' => 'lsa', 'Lsat_1_v5_gn_5_92480' => 'lsa', 'Lsat_1_v5_gn_5_92600' => 'lsa', 'Lsat_1_v5_gn_6_69420' => 'lsa', 'Lsat_1_v5_gn_7_47020' => 'lsa', 'Lsat_1_v5_gn_7_47200' => 'lsa', 'Lsat_1_v5_gn_7_47280' => 'lsa', 'Lsat_1_v5_gn_7_47340' => 'lsa', 'Manes.04G106700' => 'mes', 'Manes.10G072500' => 'mes', 'Manes.11G062600' => 'mes', 'Mapoly0002s0057' => 'mpo', 'Mapoly0002s0059' => 'mpo', 'Mapoly0002s0060' => 'mpo', 'Mapoly0006s0282' => 'mpo', 'Mapoly0007s0281' => 'mpo', 'MBI14_g07748_MAGBIO' => 'mbi', 'MBI14_g07749_MAGBIO' => 'mbi', 'MBI14_g15791_MAGBIO' => 'mbi', 'MBI14_g15792_MAGBIO' => 'mbi', 'MBI14_g20579_MAGBIO' => 'mbi', 'MBI14_g20580_MAGBIO' => 'mbi', 'MBI15_g04007_MAGBIO' => 'mbi', 'MBI15_g04008_MAGBIO' => 'mbi', 'MBI15_g07208_MAGBIO' => 'mbi', 'MBI15_g22205_MAGBIO' => 'mbi', 'MD17G1218100' => 'mdo', 'MD17G1218200' => 'mdo', 'MD17G1218300' => 'mdo', 'Medtr4g009340' => 'mtr', 'Medtr4g009590' => 'mtr', 'Medtr4g009620' => 'mtr', 'Medtr7g017620' => 'mtr', 'MELO3C017852.2' => 'cme', 'MELO3C022202.2' => 'cme', 'MELO3C022206.2' => 'cme', 'MELO3C023448.2' => 'cme', 'MELO3C023449.2' => 'cme', 'Migut.D01090' => 'egut', 'Migut.I00731' => 'egut', 'Migut.I00732' => 'egut', 'Migut.J01239' => 'egut', 'Migut.J01242' => 'egut', 'Migut.J01257' => 'egut', 'Migut.J01260' => 'egut', 'Migut.J01261' => 'egut', 'MSTRG.11165' => 'ama', 'MSTRG.11166' => 'ama', 'MSTRG.22772' => 'ama', 'MSTRG.22774' => 'ama', 'MSTRG.22775' => 'ama', 'MSTRG.22776' => 'ama', 'Nitab4.5_0000373g0220' => 'nta', 'Nitab4.5_0000373g0250' => 'nta', 'Nitab4.5_0000550g0040' => 'nta', 'Nitab4.5_0000957g0090' => 'nta', 'Nitab4.5_0002322g0170' => 'nta', 'Nitab4.5_0002329g0190' => 'nta', 'Nitab4.5_0004217g0080' => 'nta', 'Nitab4.5_0005760g0020' => 'nta', 'Nitab4.5_0005760g0030' => 'nta', 'Nitab4.5_0008310g0010' => 'nta', 'Nitab4.5_0008310g0060' => 'nta', 'Nitab4.5_0011013g0020' => 'nta', 'Nn001s41352' => 'nnu', 'Nn8g39677' => 'nnu', 'Nn8g39678' => 'nnu', 'Nn8g39679' => 'nnu', 'Oeu026255.1' => 'oeu', 'Oeu044528.1' => 'oeu', 'Oeu045117.1' => 'oeu', 'Oeu045119.1' => 'oeu', 'Oeu045120.1' => 'oeu', 'Oeu045121.1' => 'oeu', 'Oeu045122.1' => 'oeu', 'Oeu056085.1' => 'oeu', 'Os03g0591600' => 'osa', 'Os06g0179500' => 'osa', 'Os08g0167400' => 'osa', 'Peaxi162Scf00207g00537' => 'pax', 'Peaxi162Scf00332g10028' => 'pax', 'Peaxi162Scf01566g00005' => 'pax', 'PGR102G1046' => 'pgr', 'PGR142G0701' => 'pgr', 'PGR142G0987' => 'pgr', 'PGR142G1287' => 'pgr', 'PGR142G2064' => 'pgr', 'PGSC0003DMG400010962' => 'stu', 'PGSC0003DMG400014132' => 'stu', 'PGSC0003DMG400018746' => 'stu', 'PGSC0003DMG400028525' => 'stu', 'Phvul.004G134500' => 'pvu', 'Phvul.004G134600' => 'pvu', 'Phvul.004G134800' => 'pvu', 'Phvul.008G011100' => 'pvu', 'Phvul.008G024200' => 'pvu', 'Phvul.010G158100' => 'pvu', 'Phvul.L001653' => 'pvu', 'Phvul.L001658' => 'pvu', 'Potri.001G205100' => 'ptr', 'Potri.001G337800' => 'ptr', 'Potri.001G337900' => 'ptr', 'Potri.003G024100' => 'ptr', 'Potri.003G205900' => 'ptr', 'Potri.009G085300' => 'ptr', 'Potri.017G062900' => 'ptr', 'Potri.017G124100' => 'ptr', 'Pp3c18_15090' => 'ppa', 'Prupe.3G093800' => 'ppe', 'Psat3g116320' => 'psa', 'Psat3g194400' => 'psa', 'Psat7g258320' => 'psa', 'Psat7g258360' => 'psa', 'PSO541G3608' => 'pso', 'QL02p020550' => 'qlo', 'QL02p020578' => 'qlo', 'QL02p020589' => 'qlo', 'QL02p020610' => 'qlo', 'QL05p033307' => 'qlo', 'QL11p016526' => 'qlo', 'RcHm_v2.0_Chr2g0134191' => 'rch', 'RcHm_v2.0_Chr2g0134241' => 'rch', 'RcHm_v2.0_Chr5g0045721' => 'rch', 'RcHm_v2.0_Chr5g0045921' => 'rch', 'RcHm_v2.0_Chr5g0045931' => 'rch', 'RcHm_v2.0_Chr5g0046291' => 'rch', 'RcHm_v2.0_Chr5g0046301' => 'rch', 'RcHm_v2.0_Chr5g0046381' => 'rch', 'RcHm_v2.0_Chr5g0046471' => 'rch', 'RcHm_v2.0_Chr6g0251731' => 'rch', 'RcHm_v2.0_Chr6g0251751' => 'rch', 'Rhsim01G0051000' => 'rsi', 'Rhsim01G0051100' => 'rsi', 'Rhsim01G0051600' => 'rsi', 'Rhsim01G0093700' => 'rsi', 'Rhsim03G0255100' => 'rsi', 'Rhsim03G0255200' => 'rsi', 'Rhsim03G0255300' => 'rsi', 'Rhsim08G0209500' => 'rsi', 'Sabra01G0158400' => 'sbr', 'Sabra03G0015200' => 'sbr', 'Sabra03G0015300' => 'sbr', 'Sabra03G0152100' => 'sbr', 'Sabra03G0152400' => 'sbr', 'Sabra16G0218600' => 'sbr', 'Sabra17G0056600' => 'sbr', 'Sabra17G0056700' => 'sbr', 'Sabra17G0102200' => 'sbr', 'Sabra17G0104900' => 'sbr', 'SalBow3G2279' => 'sbo', 'SalBow6G3379' => 'sbo', 'SalBow6G5582' => 'sbo', 'SalBow6G6102' => 'sbo', 'SalBow7G2098' => 'sbo', 'SalBow7G4194' => 'sbo', 'Sc04g0005140' => 'sci', 'Sc04g0005150' => 'sci', 'Sc04g0005160' => 'sci', 'Sc13g0002980' => 'sci', 'Sc18g0000100' => 'sci', 'Sed0000640' => 'sed', 'Sed0002601' => 'sed', 'Sed0005263' => 'sed', 'Sed0005584' => 'sed', 'Sed0006344' => 'sed', 'Sed0011589' => 'sed', 'Sed0012594' => 'sed', 'Sed0016415' => 'sed', 'Sed0024998' => 'sed', 'SEGI_00777' => 'sgi', 'SEGI_01848' => 'sgi', 'SEGI_02072' => 'sgi', 'SEGI_02759' => 'sgi', 'SEGI_03045' => 'sgi', 'SEGI_03428' => 'sgi', 'SEGI_03759' => 'sgi', 'SEGI_04852' => 'sgi', 'SEGI_05288' => 'sgi', 'SEGI_05672' => 'sgi', 'SEGI_05835' => 'sgi', 'SEGI_06053' => 'sgi', 'SEGI_06561' => 'sgi', 'SEGI_06617' => 'sgi', 'SEGI_06863' => 'sgi', 'SEGI_07771' => 'sgi', 'SEGI_08708' => 'sgi', 'SEGI_09390' => 'sgi', 'SEGI_09832' => 'sgi', 'SEGI_10067' => 'sgi', 'SEGI_10202' => 'sgi', 'SEGI_10537' => 'sgi', 'SEGI_10639' => 'sgi', 'SEGI_11337' => 'sgi', 'SEGI_12578' => 'sgi', 'SEGI_12866' => 'sgi', 'SEGI_13471' => 'sgi', 'SEGI_13508' => 'sgi', 'SEGI_13511' => 'sgi', 'SEGI_13917' => 'sgi', 'SEGI_14021' => 'sgi', 'SEGI_15814' => 'sgi', 'SEGI_16238' => 'sgi', 'SEGI_16245' => 'sgi', 'SEGI_17694' => 'sgi', 'SEGI_17918' => 'sgi', 'SEGI_18164' => 'sgi', 'SEGI_18511' => 'sgi', 'SEGI_19053' => 'sgi', 'SEGI_19157' => 'sgi', 'SEGI_19793' => 'sgi', 'SEGI_19866' => 'sgi', 'SEGI_19969' => 'sgi', 'SEGI_20210' => 'sgi', 'SEGI_20235' => 'sgi', 'SEGI_20693' => 'sgi', 'SEGI_21019' => 'sgi', 'SEGI_21244' => 'sgi', 'SEGI_23352' => 'sgi', 'SEGI_23477' => 'sgi', 'SEGI_23901' => 'sgi', 'SEGI_24103' => 'sgi', 'SEGI_24828' => 'sgi', 'SEGI_25752' => 'sgi', 'SEGI_26206' => 'sgi', 'SEGI_26222' => 'sgi', 'SEGI_26479' => 'sgi', 'SEGI_26915' => 'sgi', 'SEGI_27572' => 'sgi', 'SEGI_27741' => 'sgi', 'SEGI_28508' => 'sgi', 'SEGI_29298' => 'sgi', 'SEGI_29498' => 'sgi', 'SEGI_30475' => 'sgi', 'SEGI_30834' => 'sgi', 'SEGI_32188' => 'sgi', 'SEGI_32220' => 'sgi', 'SEGI_32885' => 'sgi', 'SEGI_33480' => 'sgi', 'SEGI_33492' => 'sgi', 'SEGI_33560' => 'sgi', 'SEGI_33729' => 'sgi', 'SEGI_34691' => 'sgi', 'SEGI_36131' => 'sgi', 'SEGI_36753' => 'sgi', 'SEGI_36914' => 'sgi', 'SEGI_37010' => 'sgi', 'SEGI_37820' => 'sgi', 'SEGI_38765' => 'sgi', 'SEGI_39966' => 'sgi', 'SEGI_41549' => 'sgi', 'SGA_v2.0_scaffold26G11330' => 'sas', 'SGA_v2.0_scaffold5G02737' => 'sas', 'SHI11272' => 'shi', 'Solyc03g117260.2' => 'sly', 'Solyc06g068340.3' => 'sly', 'Solyc07g006930.1' => 'sly', 'Solyc07g007010.1' => 'sly', 'Sopen03g036150' => 'spe', 'Sopen06g025610' => 'spe', 'Sopen07g003080' => 'spe', 'Sp3g01680' => 'spa', 'TAR625G0469' => 'tar', 'TAR625G0859' => 'tar', 'TAR625G0911' => 'tar', 'TAR626G0504' => 'tar', 'TAR626G1038' => 'tar', 'TAR633G1260' => 'tar', 'THA.LOC104812455' => 'tha', 'Thecc.05G026400' => 'tca', 'Thecc.06G035100' => 'tca', 'Thecc.06G035300' => 'tca', 'Thecc.06G035400' => 'tca', 'Thecc.07G161300' => 'tca', 'Thecc.07G162100' => 'tca', 'Thhalv10022378m.g' => 'esa', 'TPR.G10856' => 'tpr', 'TPR.G3236' => 'tpr', 'TPR.G38595' => 'tpr', 'TPR.G38642' => 'tpr', 'TPR.G38643' => 'tpr', 'TWI18G0392' => 'twi', 'TWI18G0615' => 'twi', 'TWI18G0881' => 'twi', 'TWI18G0971' => 'twi', 'TWI18G1138' => 'twi', 'TWI18G1334' => 'twi', 'TWI34G1133' => 'twi', 'unitig_747.g21301' => 'ugi', 'vmacro06102' => 'vma', 'vmacro06414' => 'vma', 'vmacro19030' => 'vma', 'vmacro21892' => 'vma', 'vmacro23270' => 'vma', 'vmacro23271' => 'vma', 'VMungo0331G2052' => 'vmu', 'VMungo0464G0635' => 'vmu', 'VMungo0464G1414' => 'vmu', 'VMungo0720G0245' => 'vmu', 'VMungo0720G1478' => 'vmu', 'VMungo0720G1885' => 'vmu', 'VMungo1383G3427' => 'vmu', 'Zm00001eb021080' => 'zma', 'Zm00001eb172080' => 'zma', 'Zm00001eb235740' => 'zma', 'Zm00001eb374950' => 'zma' ) $gf_id = 'HOM05D000991' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000991' ) $data_identifier = 'HOM05D000991' $data_type = 'gf_id' $species_gene_counts = array( 'aar' => (int) 1, 'aag' => (int) 1, 'ach' => (int) 5, 'amhyb' => (int) 2, 'aly' => (int) 1, 'aox' => (int) 1, 'arhy' => (int) 2, 'ath' => (int) 1, 'atr' => (int) 3, 'acertr' => (int) 1, 'cqu' => (int) 5, 'bca' => (int) 2, 'bna' => (int) 3, 'bol' => (int) 1, 'bra' => (int) 1, 'cansat' => (int) 3, 'chi' => (int) 1, 'cru' => (int) 1, 'car' => (int) 1, 'ccan' => (int) 12, 'cfa' => (int) 9, 'ccl' => (int) 12, 'cil' => (int) 8, 'cla' => (int) 6, 'col' => (int) 10, 'cpa' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 15, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 3, 'eca' => (int) 13, 'bvu' => (int) 3, 'egr' => (int) 21, 'fan' => (int) 4, 'fve' => (int) 1, 'gma' => (int) 10, 'ghi' => (int) 4, 'gra' => (int) 2, 'vvi' => (int) 4, 'han' => (int) 32, 'cav' => (int) 10, 'vpl' => (int) 4, 'lal' => (int) 2, 'lja' => (int) 2, 'lonja' => (int) 54, 'lsa' => (int) 15, 'mes' => (int) 3, 'mpo' => (int) 5, 'mbi' => (int) 10, 'mdo' => (int) 3, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 8, 'ama' => (int) 6, 'nta' => (int) 12, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 3, 'pgr' => (int) 5, 'stu' => (int) 4, 'pvu' => (int) 8, 'ptr' => (int) 8, 'ppa' => (int) 1, 'ppe' => (int) 1, 'psa' => (int) 4, 'pso' => (int) 1, 'qlo' => (int) 6, 'rch' => (int) 11, 'rsi' => (int) 8, 'sbr' => (int) 10, 'sbo' => (int) 6, 'sci' => (int) 5, 'sed' => (int) 9, 'sgi' => (int) 81, 'sas' => (int) 2, 'shi' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 3, 'spa' => (int) 1, 'tar' => (int) 6, 'tha' => (int) 1, 'tca' => (int) 6, 'esa' => (int) 1, 'tpr' => (int) 5, 'twi' => (int) 7, 'ugi' => (int) 1, 'vma' => (int) 6, 'vmu' => (int) 7, 'zma' => (int) 4 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb374950' $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